Table 1.
Identification of P. aeruginosa cas operons and CRISPR arrays with CasCollect
| CRISPR arrays | CRISPR spacers | Cas genes | |||||||
|---|---|---|---|---|---|---|---|---|---|
| Strain | SRA | Reads | Type | Total | Isolated | Total | Isolated | # | Operon |
| AR054 | SRR3112316 | 18 70 045 | TypeIF | 4 | 0 | 60 | 0 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| TypeIE | 8 | Cas2, Cas1, Cas6, Cas5, Cas7, Cse2, Cse1, Cas3 | |||||||
| AR064 | SRR3290649 | 12 27 158 | TypeIC | 1 | 0 | 38 | 0 | 7 | Cas2, Cas1, Cas4, Cas7c, Cas8c, Cas5c, Cas3 |
| AR095 | SRR3242025 | 9 02 598 | TypeIE | 2 | 0 | 48 | 0 | 8 | Cas3, Cse1, Cse2, Cas7, Cas5, Cas6, Cas1, Cas2 |
| AR103 | SRR3112341 | 24 75 405 | TypeIF | 4 | 0 | 61 | 0 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| TypeIE | 8 | Cas2, Cas1, Cas6, Cas5, Cas7, Cse2, Cse1, Cas3 | |||||||
| AR108 | SRR3112343 | 20 06 256 | TypeIF | 3 | 1 | 67 | 14 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR110 | SRR3112345 | 17 22 889 | TypeIF | 3 | 1 | 64* | 15 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR111 | SRR3112346 | 28 66 888 | TypeIF | 3 | 1 | 66 | 15 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| TypeU | 4 | Csf4, Csf1, Csf2, Csf3 | |||||||
| AR229 | SRR4417530 | 4 87 104 | TypeIF | 3 | 1 | 37 | 8 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR230 | SRR4417531 | 4 74 301 | TypeIF | 3 | 1 | 64 | 14 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR235 | SRR4417560 | 6 80 848 | TypeIF | 2 | 0 | 29 | 0 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR238 | SRR4417563 | 9 84 680 | TypeIE | 2 | 0 | 18 | 0 | 8 | Cas2, Cas1, Cas6, Cas5, Cas7, Cse2, Cse1, Cas3 |
| AR241 | SRR5122324 | 16 63 553 | TypeU | 0 | n/a | 0 | n/a | 4 | Csf3, Csf2, Csf1, Csf4 |
| AR242 | SRR5122326 | 8 59 269 | TypeIF | 3 | 1 | 65 | 15 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR243 | SRR5122330 | 7 20 605 | TypeIF | 3 | 1 | 65 | 15 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR245 | SRR5122327 | 11 67 898 | TypeU | 0 | n/a | 0 | n/a | 4 | Csf4, Csf1, Csf2, Csf3 |
| AR246 | SRR5122329 | 16 34 253 | TypeIF | 3 | 1 | 36 | 7 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR248 | SRR5122328 | 7 98 142 | TypeIF | 3 | 1 | 65 | 15 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR249 | SRR5122332 | 22 75 841 | TypeIF | 3 | 1 | 61 | 16 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR250 | SRR5122323 | 19 80 810 | TypeIF | 3 | 1 | 36 | 7 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR254 | SRR4417537 | 10 00 255 | TypeIF | 3 | 1 | 64 | 15 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR255 | SRR4417538 | 8 35 729 | TypeIF | 3 | 1 | 64 | 15 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR256 | SRR4417539 | 9 79 368 | TypeIF | 3 | 1 | 40 | 12 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR261 | SRR4417545 | 9 14 206 | TypeIF | 2 | 0 | 31 | 0 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR262 | SRR4417546 | 10 25 205 | TypeIF | 4 | 0 | 66 | 0 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| TypeIE | 7 | Cas2, Cas6, Cas5, Cas7, Cse2, Cse1, Cas3 | |||||||
| AR267 | SRR4417551 | 8 30 201 | TypeIF | 3 | 1 | 40 | 12 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR268 | SRR4417552 | 9 25 471 | TypeIF | 4 | 0 | 65 | 0 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| TypeIE | 7 | Cas2, Cas6, Cas5, Cas7, Cse2, Cse1, Cas3 | |||||||
| AR351 | SRR6799223 | 44 31 783 | TypeIF | 2 | 0 | 21 | 0 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR355 | SRR6799377 | 42 89 796 | TypeIF | 3 | 1 | 40 | 5 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |
| AR356 | SRR6799380 | 53 82 136 | TypeIF | 3 | 2 | 26 | 14 | 3 | Csf2, Cas6, Cas1** |
| AR358 | SRR6799384 | 32 11 585 | TypeIE | 3 | 0 | 31 | 0 | 8 | Cas2, Cas1, Cas6, Cas5, Cas7, Cse2, Cse1, Cas3 |
| TypeIE | 6 | Cas2, Cas1, Cas6, Cas5, Cas7, Cse2 | |||||||
| AR360 | SRR6799389 | 33 30 069 | TypeIF | 3 | 1 | 45 | 10 | 6 | Cas1, Cas3-Cas2, Csy1, Csy2, Csy3, Cas6 |